## Loading required package: ggplot2## Loading required package: cowplot##
## ********************************************************## Note: As of version 1.0.0, cowplot does not change the## default ggplot2 theme anymore. To recover the previous## behavior, execute:
## theme_set(theme_cowplot())## ********************************************************## Loading required package: Matrix## Registered S3 method overwritten by 'R.oo':
## method from
## throw.default R.methodsS3##
## Attaching package: 'tidyr'## The following objects are masked from 'package:Matrix':
##
## expand, pack, unpack##
## Attaching package: 'dplyr'## The following objects are masked from 'package:stats':
##
## filter, lag## The following objects are masked from 'package:base':
##
## intersect, setdiff, setequal, union##
## Attaching package: 'magrittr'## The following object is masked from 'package:tidyr':
##
## extractLook at changes in gene expression of lola target genes
Project: Promoter Opening
Author: Vivek
Generated: Tue Jan 25 2022, 09:22 AM
## Scaling data matrix
## Scaling data matrix
## Scaling data matrix
## Scaling data matrix
## Scaling data matrix## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries
## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries
## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries
## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries
## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries
## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries
## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries
## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries
## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries
## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries
## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries
## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries
## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries
## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries
## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries
## Warning in as_grob.default(plot): Cannot convert object of class environment
## into a grob.
## Warning in as_grob.default(plot): Cannot convert object of class NULL into a
## grob.
Session information
For reproducibility, this analysis was performed with the following R/Bioconductor session:
R version 3.6.1 (2019-07-05)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 18.04.2 LTS
Matrix products: default
BLAS: /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.7.1
LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.7.1
locale:
[1] LC_CTYPE=C.UTF-8 LC_NUMERIC=C LC_TIME=C.UTF-8
[4] LC_COLLATE=C.UTF-8 LC_MONETARY=C.UTF-8 LC_MESSAGES=C.UTF-8
[7] LC_PAPER=C.UTF-8 LC_NAME=C LC_ADDRESS=C
[10] LC_TELEPHONE=C LC_MEASUREMENT=C.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] RColorBrewer_1.1-2 magrittr_1.5 dplyr_0.8.3 tidyr_1.0.0
[5] Seurat_2.3.1 Matrix_1.2-17 cowplot_1.0.0 ggplot2_3.2.1
[9] pander_0.6.3
loaded via a namespace (and not attached):
[1] snow_0.4-3 backports_1.1.4 Hmisc_4.2-0
[4] VGAM_1.1-3 plyr_1.8.4 igraph_1.2.4.1
[7] lazyeval_0.2.2 splines_3.6.1 digest_0.6.20
[10] foreach_1.5.0 htmltools_0.3.6 lars_1.2
[13] gdata_2.18.0 checkmate_1.9.4 cluster_2.1.0
[16] mixtools_1.2.0 ROCR_1.0-7 recipes_0.1.13
[19] gower_0.2.2 R.utils_2.9.0 colorspace_1.4-1
[22] xfun_0.29 crayon_1.3.4 jsonlite_1.6
[25] zeallot_0.1.0 survival_2.44-1.1 zoo_1.8-6
[28] iterators_1.0.12 ape_5.3 glue_1.3.1
[31] gtable_0.3.0 ipred_0.9-9 kernlab_0.9-29
[34] prabclus_2.3-2 DEoptimR_1.0-8 scales_1.0.0
[37] bibtex_0.4.2 Rcpp_1.0.5 metap_1.1
[40] dtw_1.22-3 htmlTable_1.13.1 tclust_1.4-2
[43] reticulate_1.13 foreign_0.8-72 proxy_0.4-24
[46] mclust_5.4.6 SDMTools_1.1-221.1 Formula_1.2-3
[49] stats4_3.6.1 tsne_0.1-3 lava_1.6.8
[52] prodlim_2019.11.13 htmlwidgets_1.3 FNN_1.1.3
[55] gplots_3.0.1.1 fpc_2.2-8 acepack_1.4.1
[58] modeltools_0.2-23 ellipsis_0.2.0.1 ica_1.0-2
[61] pkgconfig_2.0.2 R.methodsS3_1.7.1 flexmix_2.3-17
[64] nnet_7.3-12 caret_6.0-86 tidyselect_0.2.5
[67] labeling_0.3 rlang_0.4.0 reshape2_1.4.3
[70] munsell_0.5.0 tools_3.6.1 generics_0.0.2
[73] ranger_0.12.1 ggridges_0.5.1 evaluate_0.14
[76] stringr_1.4.0 yaml_2.2.0 npsurv_0.4-0
[79] ModelMetrics_1.2.2.2 knitr_1.24 fitdistrplus_1.0-14
[82] robustbase_0.93-6 caTools_1.17.1.2 purrr_0.3.2
[85] RANN_2.6.1 pbapply_1.4-2 nlme_3.1-141
[88] R.oo_1.22.0 compiler_3.6.1 rstudioapi_0.10
[91] png_0.1-7 lsei_1.2-0 tibble_2.1.3
[94] stringi_1.4.3 lattice_0.20-38 vctrs_0.2.0
[97] diffusionMap_1.2.0 pillar_1.4.2 lifecycle_0.1.0
[100] Rdpack_0.11-0 lmtest_0.9-37 jquerylib_0.1.4
[103] data.table_1.12.2 bitops_1.0-6 irlba_2.3.3
[106] gbRd_0.4-11 R6_2.4.0 latticeExtra_0.6-28
[109] KernSmooth_2.23-15 gridExtra_2.3 codetools_0.2-16
[112] MASS_7.3-51.4 gtools_3.8.1 assertthat_0.2.1
[115] withr_2.1.2 diptest_0.75-7 parallel_3.6.1
[118] doSNOW_1.0.18 grid_3.6.1 rpart_4.1-15
[121] timeDate_3043.102 class_7.3-15 rmarkdown_2.11
[124] segmented_1.2-0 Cairo_1.5-10 Rtsne_0.15
[127] pROC_1.16.2 scatterplot3d_0.3-41 lubridate_1.7.9
[130] base64enc_0.1-3